|
| Status |
Public on Jun 01, 2014 |
| Title |
Wild type (Col-0) inflorescence, moderate drought-treated, day 5, replicate 2 |
| Sample type |
RNA |
| |
|
| Source name |
Arabidopsis inflorescence sampled 5 days later from moderate drought-treated plant
|
| Organism |
Arabidopsis thaliana |
| Characteristics |
tissue: Unopen flower buds
cultivar: Col-0
age: at day 29 after seed germination
|
| Treatment protocol |
Arabidopsis were well-watered until after just bolting (after 24 days growth with the main stem about 1 cm high) when moderate drought treatment was started by withholding water (defined as day 0 for moderate drought treatment). The relative soil moisture content decreased rapidly and, after about 48 hours the relative soil moisture content was near 50 % of the soil water capacity (collecting M3 sample at day 3(72 h after withholding water). The soil water condition was maintained by daily watering until almost all the fruits were mature and ready to harvest (about 50 days). For well-watered (control) plants, 90% of the soil water capacity was maintained until tissue harvest or after seed maturation (pots were weighed and watered twice per day). Unopened floral buds samples were collected at day 0, 3, 4, 5, 10.
|
| Growth protocol |
Seeds were directly sown into pots containing 100g soil mixture of Metro-Mix 360 soil (Sun Gro Horticulture Canada Ltd) and Turface profile greens grade (Profile Products LLC) in 3:2 ratio by volume, with a maximum water-holding capacity of 100g (defined as 100% soil moisture). Seeds were stratified in a cold room for 2 d at 4 ℃ in the dark. After stratification, the pots with seeds were transferred into a Conviron growth chamber (Conviron Inc), which was set at our normal conditions (22 ℃, 16h day/8h night photoperied, ~300 μmol m-2 s-1 photon flux, 60% humidity) until just after flowering (bolting) when some of the plants were subjected to moderate drought stress.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was isolated from unopened flower buds using RNeasy columns following instructions from the manufacturer (Qiagen, Valencia, CA, USA).
|
| Label |
biotin
|
| Label protocol |
Standard Affymetrix protocol.
|
| |
|
| Hybridization protocol |
Standard Affymetrix protocol.
|
| Scan protocol |
Standard Affymetrix protocol.
|
| Description |
Gene expression data from Arabidopsis unopen flower buds sampled 5 days later from drought-treated plant
|
| Data processing |
The data were analyzed by using robust multi-array averaging (RMA, including background subtraction, summarization by median polish and quantile normalization) with the R/Bioconductor package affy. and then converted to logarithm base 2.
|
| |
|
| Submission date |
Feb 27, 2014 |
| Last update date |
Jun 01, 2014 |
| Contact name |
Zhao SU |
| Organization name |
The Penn State University
|
| Department |
Biology
|
| Lab |
Sarah Assmann
|
| Street address |
354 N. Frear
|
| City |
University Park |
| State/province |
PA |
| ZIP/Postal code |
16802 |
| Country |
USA |
| |
|
| Platform ID |
GPL198 |
| Series (1) |
| GSE55431 |
Expression data from Arabidopsis flowers under moderate drought stress |
|
